Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0102_(-)_117711_119696
DateTue Jul 23 14:50:14 BST 2019
Unique Job IDb791b6bcb6c4a31a
SequenceMGTHGATKSA ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:22.032 Y:28.862 Z:42.092
Model (left) based on template c4flaC_
Top template information
PDB header:transcription
Chain: C: PDB Molecule:regulation of nuclear pre-mrna domain-containing protein
PDBTitle: crystal structure of human rprd1b, carboxy-terminal domain
Confidence and coverage
Confidence: 44.9% Coverage: 4%
29 residues ( 4% of your sequence) have been modelled with 44.9% confidence by the single highest scoring template.
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Sequence analysis 

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Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

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Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c4flaC_
44.9 31
PDB header:transcription
Chain: C: PDB Molecule:regulation of nuclear pre-mrna domain-containing protein
PDBTitle: crystal structure of human rprd1b, carboxy-terminal domain
2c5fwlE_
41.7 19
PDB header:chaperone
Chain: E: PDB Molecule:hsp90 co-chaperone cdc37;
PDBTitle: atomic cryoem structure of hsp90-cdc37-cdk4 complex
3c5kxfA_
41.0 29
PDB header:rna binding protein
Chain: A: PDB Molecule:flowering time control protein fpa;
PDBTitle: crystal structure of the spoc domain of the arabidopsis flowering2 regulator fpa
4c5n9mA_
34.1 9
PDB header:transferase
Chain: A: PDB Molecule:cobyric acid synthase;
PDBTitle: crystal structure of gatd - a glutamine amidotransferase from2 staphylococcus aureus involved in peptidoglycan amidation
5c2w8aC_
32.0 7
PDB header:membrane protein
Chain: C: PDB Molecule:glycine betaine transporter betp;
PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate
6d1v4pa_
31.2 21
Fold:RRF/tRNA synthetase additional domain-like
Superfamily:ThrRS/AlaRS common domain
Family:AlaX-like
7c6bn1B_
30.8 46
PDB header:signaling protein
Chain: B: PDB Molecule:scaffold protein salvador;
PDBTitle: salvador hippo sarah domain complex
8c6ao5B_
30.8 38
PDB header:signaling protein
Chain: B: PDB Molecule:protein salvador homolog 1;
PDBTitle: crystal structure of human mst2 in complex with sav1 sarah domain
9d1f6ga_
28.1 15
Fold:Voltage-gated potassium channels
Superfamily:Voltage-gated potassium channels
Family:Voltage-gated potassium channels
10c4ainB_
27.4 9
PDB header:membrane protein
Chain: B: PDB Molecule:glycine betaine transporter betp;
PDBTitle: crystal structure of betp with asymmetric protomers.
11c2jo1A_
25.3 23
PDB header:hydrolase regulator
Chain: A: PDB Molecule:phospholemman;
PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles
12c6hwhX_
22.1 42
PDB header:electron transport
Chain: X: PDB Molecule:cytochrome c oxidase polypeptide 4;
PDBTitle: structure of a functional obligate respiratory supercomplex from2 mycobacterium smegmatis
13c1ddxA_
21.3 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (prostaglandin h2 synthase-2);
PDBTitle: crystal structure of a mixture of arachidonic acid and prostaglandin2 bound to the cyclooxygenase active site of cox-2: prostaglandin3 structure
14c5z51A_
20.6 18
PDB header:transferase
Chain: A: PDB Molecule:dna primase;
PDBTitle: helicase binding domain of primase from mycobacterium tuberculosis
15c3pghD_
20.6 18
PDB header:oxidoreductase
Chain: D: PDB Molecule:cyclooxygenase-2;
PDBTitle: cyclooxygenase-2 (prostaglandin synthase-2) complexed with a non-2 selective inhibitor, flurbiprofen
16d1cvua1
20.6 18
Fold:Heme-dependent peroxidases
Superfamily:Heme-dependent peroxidases
Family:Myeloperoxidase-like
17d1gvna_
18.1 33
Fold:immunoglobulin/albumin-binding domain-like
Superfamily:Plasmid maintenance system epsilon/zeta, antidote epsilon subunit
Family:Plasmid maintenance system epsilon/zeta, antidote epsilon subunit
18d1q4ga1
17.5 12
Fold:Heme-dependent peroxidases
Superfamily:Heme-dependent peroxidases
Family:Myeloperoxidase-like
19c6hc2L_
14.5 25
PDB header:cell cycle
Chain: L: PDB Molecule:nuclear mitotic apparatus protein 1;
PDBTitle: crystal structure of numa/lgn hetero-hexamers
20d1q90d_
13.7 17
Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
21c4tq0D_
not modelled 13.0 24
PDB header:protein binding
Chain: D: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg5-atg16n69
22c4tq0B_
not modelled 12.6 24
PDB header:protein binding
Chain: B: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg5-atg16n69
23c2ksfA_
not modelled 11.0 21
PDB header:transferase
Chain: A: PDB Molecule:sensor protein kdpd;
PDBTitle: backbone structure of the membrane domain of e. coli histidine kinase2 receptor kdpd, center for structures of membrane proteins (csmp)3 target 4312c
24c2lonA_
not modelled 10.9 21
PDB header:membrane protein
Chain: A: PDB Molecule:hig1 domain family member 1b;
PDBTitle: backbone structure of human membrane protein higd1b
25d2vcha1
not modelled 10.7 5
Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:UDPGT-like
26c5npwF_
not modelled 10.3 24
PDB header:cell cycle
Chain: F: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: structure of human atg5-atg16l1(atg5bd) complex (c2)
27c5npvD_
not modelled 10.3 24
PDB header:cell cycle
Chain: D: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: structure of human atg5-atg16l1(atg5bd) complex (i4)
28c2lomA_
not modelled 10.3 15
PDB header:membrane protein
Chain: A: PDB Molecule:hig1 domain family member 1a;
PDBTitle: backbone structure of human membrane protein higd1a
29c5npvB_
not modelled 10.2 24
PDB header:cell cycle
Chain: B: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: structure of human atg5-atg16l1(atg5bd) complex (i4)
30c3c4rC_
not modelled 9.8 21
PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an uncharacterized protein encoded by2 cryptic prophage
31c2n28A_
not modelled 9.8 18
PDB header:viral protein
Chain: A: PDB Molecule:protein vpu;
PDBTitle: solid-state nmr structure of vpu
32c2oyuP_
not modelled 9.6 12
PDB header:oxidoreductase
Chain: P: PDB Molecule:prostaglandin g/h synthase 1;
PDBTitle: indomethacin-(s)-alpha-ethyl-ethanolamide bound to cyclooxygenase-1
33c3aqgB_
not modelled 9.5 50
PDB header:unknown function
Chain: B: PDB Molecule:zymogen granule protein 16 homolog b;
PDBTitle: crystal structure of human pancreatic secretory protein zg16b
34c1ht8B_
not modelled 9.3 12
PDB header:oxidoreductase
Chain: B: PDB Molecule:prostaglandin h2 synthase-1;
PDBTitle: the 2.7 angstrom resolution model of ovine cox-1 complexed with2 alclofenac
35c1pggB_
not modelled 9.3 12
PDB header:oxidoreductase
Chain: B: PDB Molecule:prostaglandin h2 synthase-1;
PDBTitle: prostaglandin h2 synthase-1 complexed with 1-(4-iodobenzoyl)-5-2 methoxy-2-methylindole-3-acetic acid (iodoindomethacin), trans model
36c5d3aA_
not modelled 9.2 13
PDB header:motor protein
Chain: A: PDB Molecule:kinesin-like protein kif21a;
PDBTitle: kif21a regulatory coiled coil
37c5zt3A_
not modelled 8.9 19
PDB header:plant protein
Chain: A: PDB Molecule:wa352;
PDBTitle: crystal structure of wa352 from oryza sativa
38c3m6cA_
not modelled 8.3 18
PDB header:chaperone
Chain: A: PDB Molecule:60 kda chaperonin 1;
PDBTitle: crystal structure of mycobacterium tuberculosis groel1 apical domain
39d2e74b1
not modelled 8.3 14
Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
40c5whaF_
not modelled 8.2 20
PDB header:protein binding
Chain: F: PDB Molecule:miniprotein 225-11;
PDBTitle: kras g12v, bound to gdp and miniprotein 225-11
41d1sjpa2
not modelled 8.0 12
Fold:The "swivelling" beta/beta/alpha domain
Superfamily:GroEL apical domain-like
Family:GroEL-like chaperone, apical domain
42c2rddB_
not modelled 7.6 13
PDB header:membrane protein/transport protein
Chain: B: PDB Molecule:upf0092 membrane protein yajc;
PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.
43c3rgbG_
not modelled 7.5 20
PDB header:oxidoreductase
Chain: G: PDB Molecule:methane monooxygenase subunit c2;
PDBTitle: crystal structure of particulate methane monooxygenase from2 methylococcus capsulatus (bath)
44c4tt1A_
not modelled 7.4 21
PDB header:hydrolase
Chain: A: PDB Molecule:deneddylase;
PDBTitle: crystal structure of fragment 1600-1733 of hsv1 ul36, native
45c2ncaA_
not modelled 7.3 21
PDB header:chaperone
Chain: A: PDB Molecule:hsp90 co-chaperone cdc37;
PDBTitle: structural model for the n-terminal domain of human cdc37
46c4a1aI_
not modelled 7.3 17
PDB header:ribosome
Chain: I: PDB Molecule:60s ribosomal protein l13a;
PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 3.
47c3j3bO_
not modelled 7.3 9
PDB header:ribosome
Chain: O: PDB Molecule:60s ribosomal protein l13a;
PDBTitle: structure of the human 60s ribosomal proteins
48c4r36A_
not modelled 7.1 12
PDB header:transferase
Chain: A: PDB Molecule:putative acyl-[acyl-carrier-protein]--udp-n-
PDBTitle: crystal structure analysis of lpxa, a udp-n-acetylglucosamine2 acyltransferase from bacteroides fragilis 9343
49c2mbhB_
not modelled 7.1 17
PDB header:transcription
Chain: B: PDB Molecule:krueppel-like factor 1;
PDBTitle: nmr structure of eklf(22-40)/ubiquitin complex
50c3mawB_
not modelled 7.1 54
PDB header:viral protein
Chain: B: PDB Molecule:fusion glycoprotein f0;
PDBTitle: structure of the newcastle disease virus f protein in the post-fusion2 conformation
51c4nawG_
not modelled 7.1 25
PDB header:protein transport/ligase
Chain: G: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg12~atg5-atg16n in complex with a2 fragment of atg3
52c4nawO_
not modelled 7.1 25
PDB header:protein transport/ligase
Chain: O: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg12~atg5-atg16n in complex with a2 fragment of atg3
53c5cdjA_
not modelled 7.0 10
PDB header:chaperone
Chain: A: PDB Molecule:rubisco large subunit-binding protein subunit alpha,
PDBTitle: apical domain of chloroplast chaperonin 60a
54c4gdkC_
not modelled 6.9 25
PDB header:protein binding
Chain: C: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg12~atg5 conjugate in complex with an n-2 terminal fragment of atg16l1
55c4gdlC_
not modelled 6.9 25
PDB header:protein binding
Chain: C: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg12~atg5 conjugate in complex with an n-2 terminal fragment of atg16l1
56c4nawC_
not modelled 6.9 25
PDB header:protein transport/ligase
Chain: C: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg12~atg5-atg16n in complex with a2 fragment of atg3
57c5oc0A_
not modelled 6.9 12
PDB header:oxidoreductase
Chain: A: PDB Molecule:cytochrome b561;
PDBTitle: structure of e. coli superoxide oxidase
58c4gdkF_
not modelled 6.9 25
PDB header:protein binding
Chain: F: PDB Molecule:autophagy-related protein 16-1;
PDBTitle: crystal structure of human atg12~atg5 conjugate in complex with an n-2 terminal fragment of atg16l1
59d1kida_
not modelled 6.9 10
Fold:The "swivelling" beta/beta/alpha domain
Superfamily:GroEL apical domain-like
Family:GroEL-like chaperone, apical domain
60c6iedA_
not modelled 6.9 9
PDB header:membrane protein
Chain: A: PDB Molecule:heme a synthase;
PDBTitle: crystal structure of heme a synthase from bacillus subtilis
61c6e4hA_
not modelled 6.8 33
PDB header:oncoprotein
Chain: A: PDB Molecule:partner and localizer of brca2;
PDBTitle: solution nmr structure of the colied-coil palb2 homodimer
62c5lnkZ_
not modelled 6.7 19
PDB header:oxidoreductase
Chain: Z: PDB Molecule:mitochondrial complex i, pdsw subunit;
PDBTitle: entire ovine respiratory complex i
63d1we3a2
not modelled 6.6 10
Fold:The "swivelling" beta/beta/alpha domain
Superfamily:GroEL apical domain-like
Family:GroEL-like chaperone, apical domain
64c5y88R_
not modelled 6.5 23
PDB header:splicing
Chain: R: PDB Molecule:protein cwc16;
PDBTitle: cryo-em structure of the intron-lariat spliceosome ready for2 disassembly from s.cerevisiae at 3.5 angstrom
65c2jlnA_
not modelled 6.5 5
PDB header:membrane protein
Chain: A: PDB Molecule:mhp1;
PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter
66d1z9ha1
not modelled 6.4 13
Fold:GST C-terminal domain-like
Superfamily:GST C-terminal domain-like
Family:Glutathione S-transferase (GST), C-terminal domain
67d1hr6a2
not modelled 6.2 6
Fold:LuxS/MPP-like metallohydrolase
Superfamily:LuxS/MPP-like metallohydrolase
Family:MPP-like
68d2gv8a1
not modelled 6.1 12
Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
69c3j39O_
not modelled 6.0 13
PDB header:ribosome
Chain: O: PDB Molecule:60s ribosomal protein l13a;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
70c3iz5K_
not modelled 5.9 22
PDB header:ribosome
Chain: K: PDB Molecule:60s ribosomal protein l13a (l13p);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
71c3lofF_
not modelled 5.9 16
PDB header:chaperone
Chain: F: PDB Molecule:heat shock 70 kda protein 1;
PDBTitle: c-terminal domain of human heat shock 70kda protein 1b.
72c3vviB_
not modelled 5.9 29
PDB header:transport protein
Chain: B: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
73c3vviD_
not modelled 5.9 29
PDB header:transport protein
Chain: D: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
74c3vviE_
not modelled 5.9 29
PDB header:transport protein
Chain: E: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
75c3vviA_
not modelled 5.9 29
PDB header:transport protein
Chain: A: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
76c3vviC_
not modelled 5.9 29
PDB header:transport protein
Chain: C: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
77c3vviH_
not modelled 5.9 29
PDB header:transport protein
Chain: H: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
78c3vviF_
not modelled 5.9 29
PDB header:transport protein
Chain: F: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
79c3vviG_
not modelled 5.9 29
PDB header:transport protein
Chain: G: PDB Molecule:non selective cation channel homologous to trp channel;
PDBTitle: crystal structure of the coiled-coil domain of the transient receptor2 potential channel from gibberella zeae (trpgz)
80c2ht2B_
not modelled 5.8 7
PDB header:membrane protein
Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca;
PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex
81c4btgB_
not modelled 5.8 21
PDB header:virus
Chain: B: PDB Molecule:major inner protein p1;
PDBTitle: coordinates of the bacteriophage phi6 capsid subunits (p1a and p1b)2 fitted into the cryoem reconstruction of the procapsid at 4.4 a3 resolution
82c5dg3D_
not modelled 5.8 17
PDB header:transferase
Chain: D: PDB Molecule:acyl-[acyl-carrier-protein]--udp-n-acetylglucosamine o-
PDBTitle: structure of pseudomonas aeruginosa lpxa in complex with udp-3-o-(r-3-2 hydroxydecanoyl)-glcnac
83c3vouB_
not modelled 5.7 13
PDB header:transport protein
Chain: B: PDB Molecule:ion transport 2 domain protein, voltage-gated sodium
PDBTitle: the crystal structure of nak-navsulp chimera channel
84d1dxwa_
not modelled 5.6 15
Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Viral proteases
85c3zf7d_
not modelled 5.6 14
PDB header:ribosome
Chain: D: PDB Molecule:
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
86c2p3xA_
not modelled 5.6 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:polyphenol oxidase, chloroplast;
PDBTitle: crystal structure of grenache (vitis vinifera) polyphenol2 oxidase
87d2csba5
not modelled 5.6 38
Fold:Topoisomerase V catalytic domain-like
Superfamily:Topoisomerase V catalytic domain-like
Family:Topoisomerase V catalytic domain-like
88d1b93a_
not modelled 5.5 44
Fold:Methylglyoxal synthase-like
Superfamily:Methylglyoxal synthase-like
Family:Methylglyoxal synthase, MgsA
89c6bl5A_
not modelled 5.5 6
PDB header:viral protein
Chain: A: PDB Molecule:head decoration protein;
PDBTitle: head decoration protein from the hyperthermophilic phage p74-26
90c5zfvF_
not modelled 5.5 21
PDB header:transport protein
Chain: F: PDB Molecule:22-mer peptide from biopolymer transport protein exbd;
PDBTitle: structure of the exbb/exbd pentameric complex (exbb5exbd1tm)
91d1l8ya_
not modelled 5.5 18
Fold:HMG-box
Superfamily:HMG-box
Family:HMG-box
92c5f42B_
not modelled 5.5 14
PDB header:transferase
Chain: B: PDB Molecule:acyl-[acyl-carrier-protein]--udp-n-acetylglucosamine o-
PDBTitle: activity and crystal structure of francisella novicida udp-n-2 acetylglucosamine acyltransferase
93c5xqgC_
not modelled 5.4 26
PDB header:lyase
Chain: C: PDB Molecule:pcrglx protein;
PDBTitle: crystal structure of a pl 26 exo-rhamnogalacturonan lyase from2 penicillium chrysogenum complexed with unsaturated galacturonosyl3 rhamnose
94d1rw2a_
not modelled 5.4 29
Fold:alpha-alpha superhelix
Superfamily:C-terminal domain of Ku80
Family:C-terminal domain of Ku80
95c2f9jP_
not modelled 5.4 30
PDB header:rna binding protein
Chain: P: PDB Molecule:splicing factor 3b subunit 1;
PDBTitle: 3.0 angstrom resolution structure of a y22m mutant of the spliceosomal2 protein p14 bound to a region of sf3b155
96d1a0rp_
not modelled 5.3 7
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Phosducin
97d1bt3a_
not modelled 5.3 12
Fold:Di-copper centre-containing domain
Superfamily:Di-copper centre-containing domain
Family:Catechol oxidase
98c4odaD_
not modelled 5.3 13
PDB header:hydrolase/replication
Chain: D: PDB Molecule:dna polymerase processivity factor component a20;
PDBTitle: crystal structure of the vaccinia virus dna polymerase holoenzyme2 subunit d4 in complex with the a20 n-terminus
99c3m6zA_
not modelled 5.2 38
PDB header:isomerase
Chain: A: PDB Molecule:topoisomerase v;
PDBTitle: crystal structure of an n-terminal 44 kda fragment of topoisomerase v2 in the presence of guanidium hydrochloride

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Transmembrane helix prediction 

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